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Nam, Dougu
Statistical Genomics Lab
Research Interests
  • Gene network, pathway analysis, biclustering, disease classification

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ADGO 2.0: interpreting microarray data and list of genes using composite annotations

Cited 4 times inthomson ciCited 5 times inthomson ci
Title
ADGO 2.0: interpreting microarray data and list of genes using composite annotations
Author
Chi, Sang-MunKim, JinKim, Seon-YoungNam, Dougu
Keywords
HIGH-THROUGHPUT DATA; COMPLEX FUNCTIONALITY; ENRICHMENT ANALYSIS; SET ENRICHMENT; GENOME; TOOLS
Issue Date
201107
Publisher
OXFORD UNIV PRESS
Citation
NUCLEIC ACIDS RESEARCH, v.39, no., pp.W302 - W306
Abstract
ADGO 2.0 is a web-based tool that provides composite interpretations for microarray data comparing two sample groups as well as lists of genes from diverse sources of biological information. Some other tools also incorporate composite annotations solely for interpreting lists of genes but usually provide highly redundant information. This new version has the following additional features: first, it provides multiple gene set analysis methods for microarray inputs as well as enrichment analyses for lists of genes. Second, it screens redundant composite annotations when generating and prioritizing them. Third, it incorporates union and subtracted sets as well as intersection sets. Lastly, users can upload their own gene sets (e.g. predicted miRNA targets) to generate and analyze new composite sets. The first two features are unique to ADGO 2.0. Using our tool, we demonstrate analyses of a microarray dataset and a list of genes for T-cell differentiation. The new ADGO is available at http://www.btool.org/ADGO2.
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DOI
http://dx.doi.org/10.1093/nar/gkr392
ISSN
0305-1048
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SLS_Journal Papers
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